Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SMAD3

Cell type

Cell type Class
Neural
Cell type
BT67
NA
NA

Attributes by original data submitter

Sample

source_name
BT67
cell line
BT67
cell type
Brain tumour stem cell
chip antibodies
SMAD3 (abcam, cat#ab40854)
geo_loc_name
missing
collection_date
missing

Sequenced DNA Library

library_name
GSM7434708
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
The crosslinked cells were lysed in hypotonic cell lysis buffer and nuclei were pelleted and lysed using 10% SDS (0.3% final concentration) and sonicated to achieve the chromatin size between 200-1000bp. ChIP-seq libraries were prepared using NEB II ultra, w/o shearing kit.

Sequencing Platform

instrument_model
Illumina NovaSeq 6000

hg38

Number of total reads
19963150
Reads aligned (%)
92.8
Duplicates removed (%)
5.9
Number of peaks
18949 (qval < 1E-05)

hg19

Number of total reads
19963150
Reads aligned (%)
92.3
Duplicates removed (%)
6.0
Number of peaks
19153 (qval < 1E-05)

Base call quality data from DBCLS SRA